data_VGZ
#
_chem_comp.id VGZ
_chem_comp.name 4-acetamido-~{N}-(2-methoxyphenyl)benzamide
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C16 H16 N2 O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2021-05-18
_chem_comp.pdbx_modified_date 2022-05-27
_chem_comp.pdbx_ambiguous_flag N
_chem_comp.pdbx_release_status REL
_chem_comp.pdbx_replaced_by ?
_chem_comp.pdbx_replaces ?
_chem_comp.formula_weight 284.310
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code VGZ
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag N
_chem_comp.pdbx_ideal_coordinates_details Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code 7OJO
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBE
#
loop_
_chem_comp_atom.comp_id
_chem_comp_atom.atom_id
_chem_comp_atom.alt_atom_id
_chem_comp_atom.type_symbol
_chem_comp_atom.charge
_chem_comp_atom.pdbx_align
_chem_comp_atom.pdbx_aromatic_flag
_chem_comp_atom.pdbx_leaving_atom_flag
_chem_comp_atom.pdbx_stereo_config
_chem_comp_atom.pdbx_backbone_atom_flag
_chem_comp_atom.pdbx_n_terminal_atom_flag
_chem_comp_atom.pdbx_c_terminal_atom_flag
_chem_comp_atom.model_Cartn_x
_chem_comp_atom.model_Cartn_y
_chem_comp_atom.model_Cartn_z
_chem_comp_atom.pdbx_model_Cartn_x_ideal
_chem_comp_atom.pdbx_model_Cartn_y_ideal
_chem_comp_atom.pdbx_model_Cartn_z_ideal
_chem_comp_atom.pdbx_component_atom_id
_chem_comp_atom.pdbx_component_comp_id
_chem_comp_atom.pdbx_ordinal
VGZ C5 C1 C 0 1 Y N N N N N -34.243 2.469 0.184 4.639 1.949 0.112 C5 VGZ 1
VGZ C4 C2 C 0 1 Y N N N N N -35.306 2.040 -0.578 5.585 0.981 -0.171 C4 VGZ 2
VGZ C3 C3 C 0 1 Y N N N N N -35.382 0.725 -1.002 5.210 -0.346 -0.280 C3 VGZ 3
VGZ C2 C4 C 0 1 Y N N N N N -34.375 -0.171 -0.654 3.884 -0.708 -0.106 C2 VGZ 4
VGZ C1 C5 C 0 1 N N N N N N -35.536 -2.131 -1.409 4.545 -2.957 -0.507 C1 VGZ 5
VGZ C6 C6 C 0 1 Y N N N N N -33.232 1.586 0.538 3.314 1.596 0.287 C6 VGZ 6
VGZ C8 C7 C 0 1 N N N N N N -31.102 -0.584 1.015 0.613 0.807 0.125 C8 VGZ 7
VGZ C10 C8 C 0 1 Y N N N N N -28.957 -1.860 0.885 -1.816 1.335 -0.018 C10 VGZ 8
VGZ C11 C9 C 0 1 Y N N N N N -28.220 -3.019 1.018 -3.135 0.954 0.074 C11 VGZ 9
VGZ C12 C10 C 0 1 Y N N N N N -28.828 -4.198 1.442 -3.461 -0.357 0.407 C12 VGZ 10
VGZ C13 C11 C 0 1 N N N N N N -26.783 -5.629 1.673 -5.714 -0.198 -0.328 C13 VGZ 11
VGZ C14 C12 C 0 1 N N N N N N -26.358 -7.063 1.519 -7.175 -0.518 -0.149 C14 VGZ 12
VGZ O1 O1 O 0 1 N N N N N N -34.328 -1.488 -1.010 3.514 -2.012 -0.213 O1 VGZ 13
VGZ C7 C13 C 0 1 Y N N N N N -33.286 0.265 0.126 2.931 0.268 0.179 C7 VGZ 14
VGZ N1 N1 N 0 1 N N N N N N -32.315 -0.716 0.425 1.589 -0.093 0.357 N1 VGZ 15
VGZ O2 O2 O 0 1 N N N N N N -30.643 0.486 1.396 0.900 1.953 -0.166 O2 VGZ 16
VGZ C9 C14 C 0 1 Y N N N N N -30.317 -1.847 1.169 -0.802 0.403 0.223 C9 VGZ 17
VGZ N2 N2 N 0 1 N N N N N N -28.120 -5.418 1.588 -4.799 -0.740 0.500 N2 VGZ 18
VGZ O3 O3 O 0 1 N N N N N N -25.966 -4.739 1.875 -5.360 0.548 -1.217 O3 VGZ 19
VGZ C15 C15 C 0 1 Y N N N N N -30.194 -4.191 1.718 -2.455 -1.288 0.646 C15 VGZ 20
VGZ C16 C16 C 0 1 Y N N N N N -30.924 -3.028 1.585 -1.133 -0.914 0.556 C16 VGZ 21
VGZ H1 H1 H 0 1 N N N N N N -34.195 3.498 0.508 4.938 2.983 0.201 H1 VGZ 22
VGZ H2 H2 H 0 1 N N N N N N -36.087 2.735 -0.847 6.619 1.261 -0.307 H2 VGZ 23
VGZ H3 H3 H 0 1 N N N N N N -36.219 0.395 -1.600 5.951 -1.100 -0.502 H3 VGZ 24
VGZ H4 H4 H 0 1 N N N N N N -35.327 -3.181 -1.661 5.008 -2.705 -1.461 H4 VGZ 25
VGZ H5 H5 H 0 1 N N N N N N -36.263 -2.090 -0.584 5.299 -2.930 0.281 H5 VGZ 26
VGZ H6 H6 H 0 1 N N N N N N -35.951 -1.618 -2.289 4.116 -3.957 -0.564 H6 VGZ 27
VGZ H7 H7 H 0 1 N N N N N N -32.401 1.930 1.136 2.579 2.354 0.513 H7 VGZ 28
VGZ H8 H8 H 0 1 N N N N N N -28.471 -0.953 0.557 -1.563 2.352 -0.280 H8 VGZ 29
VGZ H9 H9 H 0 1 N N N N N N -27.164 -3.012 0.792 -3.919 1.674 -0.111 H9 VGZ 30
VGZ H10 H10 H 0 1 N N N N N N -25.265 -7.134 1.617 -7.430 -1.398 -0.740 H10 VGZ 31
VGZ H11 H11 H 0 1 N N N N N N -26.837 -7.673 2.299 -7.378 -0.716 0.903 H11 VGZ 32
VGZ H12 H12 H 0 1 N N N N N N -26.662 -7.431 0.528 -7.776 0.329 -0.481 H12 VGZ 33
VGZ H13 H13 H 0 1 N N N N N N -32.559 -1.649 0.162 1.362 -0.990 0.647 H13 VGZ 34
VGZ H14 H14 H 0 1 N N N N N N -28.688 -6.240 1.635 -5.071 -1.396 1.160 H14 VGZ 35
VGZ H15 H15 H 0 1 N N N N N N -30.683 -5.100 2.037 -2.711 -2.305 0.904 H15 VGZ 36
VGZ H16 H16 H 0 1 N N N N N N -31.981 -3.034 1.807 -0.352 -1.637 0.742 H16 VGZ 37
#
loop_
_chem_comp_bond.comp_id
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_aromatic_flag
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_ordinal
VGZ C1 O1 SING N N 1
VGZ O1 C2 SING N N 2
VGZ C3 C2 DOUB Y N 3
VGZ C3 C4 SING Y N 4
VGZ C2 C7 SING Y N 5
VGZ C4 C5 DOUB Y N 6
VGZ C7 N1 SING N N 7
VGZ C7 C6 DOUB Y N 8
VGZ C5 C6 SING Y N 9
VGZ N1 C8 SING N N 10
VGZ C10 C11 DOUB Y N 11
VGZ C10 C9 SING Y N 12
VGZ C8 C9 SING N N 13
VGZ C8 O2 DOUB N N 14
VGZ C11 C12 SING Y N 15
VGZ C9 C16 DOUB Y N 16
VGZ C12 N2 SING N N 17
VGZ C12 C15 DOUB Y N 18
VGZ C14 C13 SING N N 19
VGZ C16 C15 SING Y N 20
VGZ N2 C13 SING N N 21
VGZ C13 O3 DOUB N N 22
VGZ C5 H1 SING N N 23
VGZ C4 H2 SING N N 24
VGZ C3 H3 SING N N 25
VGZ C1 H4 SING N N 26
VGZ C1 H5 SING N N 27
VGZ C1 H6 SING N N 28
VGZ C6 H7 SING N N 29
VGZ C10 H8 SING N N 30
VGZ C11 H9 SING N N 31
VGZ C14 H10 SING N N 32
VGZ C14 H11 SING N N 33
VGZ C14 H12 SING N N 34
VGZ N1 H13 SING N N 35
VGZ N2 H14 SING N N 36
VGZ C15 H15 SING N N 37
VGZ C16 H16 SING N N 38
#
loop_
_pdbx_chem_comp_descriptor.comp_id
_pdbx_chem_comp_descriptor.type
_pdbx_chem_comp_descriptor.program
_pdbx_chem_comp_descriptor.program_version
_pdbx_chem_comp_descriptor.descriptor
VGZ InChI InChI 1.03 InChI=1S/C16H16N2O3/c1-11(19)17-13-9-7-12(8-10-13)16(20)18-14-5-3-4-6-15(14)21-2/h3-10H,1-2H3,(H,17,19)(H,18,20)
VGZ InChIKey InChI 1.03 JJUACWJXQYGXEQ-UHFFFAOYSA-N
VGZ SMILES_CANONICAL CACTVS 3.385 COc1ccccc1NC(=O)c2ccc(NC(C)=O)cc2
VGZ SMILES CACTVS 3.385 COc1ccccc1NC(=O)c2ccc(NC(C)=O)cc2
VGZ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 CC(=O)Nc1ccc(cc1)C(=O)Nc2ccccc2OC
VGZ SMILES "OpenEye OEToolkits" 2.0.7 CC(=O)Nc1ccc(cc1)C(=O)Nc2ccccc2OC
#
_pdbx_chem_comp_identifier.comp_id VGZ
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.7
_pdbx_chem_comp_identifier.identifier 4-acetamido-~{N}-(2-methoxyphenyl)benzamide
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
VGZ 'Create component' 2021-05-18 PDBE
VGZ 'Initial release' 2022-06-01 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
VGZ C5 C 5.598 6.000 1
VGZ C4 C 6.897 6.750 2
VGZ C3 C 8.196 6.000 3
VGZ C2 C 8.196 4.500 4
VGZ C1 C 10.794 4.500 5
VGZ C6 C 5.598 4.500 6
VGZ C8 C 5.598 1.500 7
VGZ C10 C 6.897 -0.750 8
VGZ C11 C 6.897 -2.250 9
VGZ C12 C 5.598 -3.000 10
VGZ C13 C 4.299 -5.250 11
VGZ C14 C 3.000 -4.500 12
VGZ O1 O 9.495 3.750 13
VGZ C7 C 6.897 3.750 14
VGZ N1 N 6.897 2.250 15
VGZ O2 O 4.299 2.250 16
VGZ C9 C 5.598 0.000 17
VGZ N2 N 5.598 -4.500 18
VGZ O3 O 4.299 -6.750 19
VGZ C15 C 4.299 -2.250 20
VGZ C16 C 4.299 -0.750 21
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
VGZ C1 O1 SINGLE NONE 1
VGZ O1 C2 SINGLE NONE 2
VGZ C3 C2 DOUBLE NONE 3
VGZ C3 C4 SINGLE NONE 4
VGZ C2 C7 SINGLE NONE 5
VGZ C4 C5 DOUBLE NONE 6
VGZ C7 N1 SINGLE NONE 7
VGZ C7 C6 DOUBLE NONE 8
VGZ C5 C6 SINGLE NONE 9
VGZ N1 C8 SINGLE NONE 10
VGZ C10 C11 DOUBLE NONE 11
VGZ C10 C9 SINGLE NONE 12
VGZ C8 C9 SINGLE NONE 13
VGZ C8 O2 DOUBLE NONE 14
VGZ C11 C12 SINGLE NONE 15
VGZ C9 C16 DOUBLE NONE 16
VGZ C12 N2 SINGLE NONE 17
VGZ C12 C15 DOUBLE NONE 18
VGZ C14 C13 SINGLE NONE 19
VGZ C16 C15 SINGLE NONE 20
VGZ N2 C13 SINGLE NONE 21
VGZ C13 O3 DOUBLE NONE 22
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
VGZ MurckoScaffold S1 scaffold O=C(Nc1ccccc1)c1ccccc1 InChI=1S/C13H11NO/c15-13(11-7-3-1-4-8-11)14-12-9-5-2-6-10-12/h1-10H,(H,14,15) ZVSKZLHKADLHSD-UHFFFAOYSA-N
VGZ amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
VGZ phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
VGZ Z57040482 F3 fragment CC(=O)Nc1ccccc1O InChI=1S/C8H9NO2/c1-6(10)9-7-4-2-3-5-8(7)11/h2-5,11H,1H3,(H,9,10) ADVGKWPZRIDURE-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
VGZ C5 S1 1
VGZ C4 S1 1
VGZ C3 S1 1
VGZ C2 S1 1
VGZ C6 S1 1
VGZ C8 S1 1
VGZ C10 S1 1
VGZ C11 S1 1
VGZ C12 S1 1
VGZ C7 S1 1
VGZ N1 S1 1
VGZ O2 S1 1
VGZ C9 S1 1
VGZ C15 S1 1
VGZ C16 S1 1
VGZ N1 F1 1
VGZ C8 F1 1
VGZ O2 F1 1
VGZ C9 F1 1
VGZ N2 F1 2
VGZ C13 F1 2
VGZ O3 F1 2
VGZ C14 F1 2
VGZ C5 F2 1
VGZ C4 F2 1
VGZ C3 F2 1
VGZ C2 F2 1
VGZ C7 F2 1
VGZ C6 F2 1
VGZ C10 F2 2
VGZ C11 F2 2
VGZ C12 F2 2
VGZ C15 F2 2
VGZ C16 F2 2
VGZ C9 F2 2
VGZ C9 F3 1
VGZ C8 F3 1
VGZ O2 F3 1
VGZ N1 F3 1
VGZ C7 F3 1
VGZ C6 F3 1
VGZ C5 F3 1
VGZ C4 F3 1
VGZ C3 F3 1
VGZ C2 F3 1
VGZ O1 F3 1
#
_pdbe_chem_comp_rdkit_properties.comp_id VGZ
_pdbe_chem_comp_rdkit_properties.exactmw 284.116
_pdbe_chem_comp_rdkit_properties.amw 284.315
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 5
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 6
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 3
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 21
_pdbe_chem_comp_rdkit_properties.NumAtoms 37
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 5
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 2
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.125
_pdbe_chem_comp_rdkit_properties.NumRings 2
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 145.080
_pdbe_chem_comp_rdkit_properties.tpsa 67.430
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.628
_pdbe_chem_comp_rdkit_properties.CrippenMR 79.169
_pdbe_chem_comp_rdkit_properties.chi0v 10.119
_pdbe_chem_comp_rdkit_properties.chi1v 5.211
_pdbe_chem_comp_rdkit_properties.chi2v 1.989
_pdbe_chem_comp_rdkit_properties.chi3v 1.989
_pdbe_chem_comp_rdkit_properties.chi4v 1.175
_pdbe_chem_comp_rdkit_properties.chi0n 26.119
_pdbe_chem_comp_rdkit_properties.chi1n 13.105
_pdbe_chem_comp_rdkit_properties.chi2n 1.989
_pdbe_chem_comp_rdkit_properties.chi3n 1.989
_pdbe_chem_comp_rdkit_properties.chi4n 1.175
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.820
_pdbe_chem_comp_rdkit_properties.kappa1 4.336
_pdbe_chem_comp_rdkit_properties.kappa2 6.562
_pdbe_chem_comp_rdkit_properties.kappa3 3.823
_pdbe_chem_comp_rdkit_properties.Phi 1.355
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
VGZ UniChem PDBe VGZ
VGZ UniChem ZINC ZINC000000030069
VGZ UniChem eMolecules 2251814
VGZ UniChem PubChem 669477
VGZ UniChem Mcule MCULE-9170007319
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
VGZ C5 5.095 0.555 2.474 ETKDGv3 1
VGZ C4 5.767 0.576 1.320 ETKDGv3 2
VGZ C3 5.045 0.446 0.040 ETKDGv3 3
VGZ C2 3.704 0.293 0.023 ETKDGv3 4
VGZ C1 3.547 0.274 -2.482 ETKDGv3 5
VGZ C6 3.630 0.380 2.473 ETKDGv3 6
VGZ C8 0.857 -0.917 0.523 ETKDGv3 7
VGZ C10 -1.324 0.460 0.539 ETKDGv3 8
VGZ C11 -2.642 0.551 0.325 ETKDGv3 9
VGZ C12 -3.407 -0.622 -0.170 ETKDGv3 10
VGZ C13 -5.515 0.631 -0.817 ETKDGv3 11
VGZ C14 -7.009 0.668 -0.805 ETKDGv3 12
VGZ O1 2.977 0.225 -1.178 ETKDGv3 13
VGZ C7 2.963 0.224 1.317 ETKDGv3 14
VGZ N1 1.537 0.044 1.346 ETKDGv3 15
VGZ O2 1.506 -1.871 0.014 ETKDGv3 16
VGZ C9 -0.606 -0.819 0.298 ETKDGv3 17
VGZ N2 -4.827 -0.553 -0.385 ETKDGv3 18
VGZ O3 -4.877 1.610 -1.288 ETKDGv3 19
VGZ C15 -2.762 -1.783 -0.369 ETKDGv3 20
VGZ C16 -1.306 -1.882 -0.142 ETKDGv3 21
VGZ H1 5.623 0.659 3.413 ETKDGv3 22
VGZ H2 6.843 0.701 1.321 ETKDGv3 23
VGZ H3 5.619 0.498 -0.875 ETKDGv3 24
VGZ H4 2.737 0.191 -3.235 ETKDGv3 25
VGZ H5 4.074 1.240 -2.632 ETKDGv3 26
VGZ H6 4.251 -0.573 -2.623 ETKDGv3 27
VGZ H7 3.103 0.353 3.418 ETKDGv3 28
VGZ H8 -0.789 1.335 0.883 ETKDGv3 29
VGZ H9 -3.145 1.484 0.539 ETKDGv3 30
VGZ H10 -7.393 0.160 0.104 ETKDGv3 31
VGZ H11 -7.369 1.719 -0.804 ETKDGv3 32
VGZ H12 -7.399 0.151 -1.706 ETKDGv3 33
VGZ H13 0.998 0.510 2.110 ETKDGv3 34
VGZ H14 -5.387 -1.430 -0.288 ETKDGv3 35
VGZ H15 -3.300 -2.657 -0.713 ETKDGv3 36
VGZ H16 -0.820 -2.833 -0.326 ETKDGv3 37
#